SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene9397

Length: 1992 nt

UniGene Fasta

>sp_v3.0_unigene9397
CCGAATTATGTTCCCATGGAGTATTGTATGCTCTGTGAAGGTCAAAGGTTTCCTCGAGATAACTTGAACGGTTACCAGTCAAAGAATTTTAGTCGAATTGCCTGCCCATCTGCTGATGAAAGACAAAGGAGAATCAATCAAATTATGCTGAGTCAAGATGGACCTAAACATGGTCCCTTTCTTCCTCACTTTGGAATGGCAGTGGTTGGGGATATGACAAAGTTGATGGGACGAGTACTAGAAGCTCCCACGCTTAAGCTCGGGGATGGAGGTCGAAATAAGCAAGTAATTCCACACCAGGAACATCGACAGTGGAACCTCATGAGTAGCCATGTTTTTGATGGGAGGCGGATTCAAAAATGGGGTCTCCTAAGCTTCAGCTGGGACAAGCCTTCGGCTGATCGAGACAACACGATTAAGACCTTCACATCTTCCTTGGTGAGAAGGTGTGGAGAGATAGGAGTGGCCATGAATCCGTTTCCTTTCATTTTGGATTATAAGCCCATGAACCAGTTCAATGATATGAAGGCCCTTCAACAAACTTTGTTGGGTGTGCAGGAAAAAGCCAAAGGGGAGTTACAAATTTTAATAATTGTTATGGAGGAGAAACATGCAGGGTATAATACTCTGAAGCTTATTGCAGAAACAGATGTAGGATTGGTGACGCAGTGTTGTTTGTATGACCCCCATGTCAAAAAATGCTCAGATCCACAAACACAATCACAAGCATCACAATATCTGGCTAATTTGGCATTGAAGATAAATGCCAAAGTGGGGGGAAGTAACGCGGCCCTTCTTCATAGCTTGTCTCGCCAGTTACCGAGATTTGGCAGCGACCATGTCATGTACATTGGCGCAGATGTCAATCATCCTGGATCGGGGGATAGTACGAGTCCTTCCATTGCTGCAGTGGTTGGAAGCATCAACTGGCCCTGGTGTAATCGCTATAATGCGAGAGTCAGCTATCAGAGTCACAGGGTGGAACACATCCAACAACTCGAGGAGATGTCTAAGGAATTACTGGACGATTATTTCAAAGCAAACAAGAAGCTACCTGATAGGATACTCTTTTTCAGAGATGGTGTAAGTGAGAGTCAATTCGATATGGTTCTCAACTCAGAATTAGATGCCCTCAGAGAAGCAGTAGCCCACTTCAAAAACTACAATCCTCCTGTTTCCTTCATAGTAGCTCAGAAGAGACATCACACCAGACTGTTCCTTGGTGATGGAGAGCAACGGACGAAGTCTGGCAATGTTCCTCCTGGCACTGTGGTGGACACAGTCATTGTTCATCCACGGCAGTTTGATTTCTATCTGTGCAGCCATAATGGGATTCTGGGCACTAGCAAGCCCACTCATTACCATGTTCTCTGGGATGATAACCGCTTCAGTTCTGATGAGCTGGAAACCTTGATTAACAATCTTTGTTATACATTTGCAAGATGCACAAAGCCAGTGTCATTGGCCCCCCCTGTGTATTATGCAGATCTTGCTGCCTATCGGGGTCGATTATACTTGCAGGGATTAGCATTTACATCGTCTGAGACTGCATCCACTTCATCCTCATCGTCGTCCTCAGCTCACCTGAATTTTCCTAAACTTCATGATGGGGTCAAGAACGCCATGTTCTTTTGCTGATTTTGCTATTTCACTGTATATGATTTTAAGGAACTGGGATTATGCATGCAAAGCATGGCCCTGCAAGTGGGCTATTTTGATTGGTACTGGCCCTGCAAGTGGGCTATTTTGATTGGTATTTGCTGAAAGTAGGTTGGTCTTAAAATGGAAAGAAATCCTTTTCCACAGAGATGGAAAGATAGTTGTAGATAGTAGATGGTATGTTCAATTTTTTTCTCTTCTGAAAATGGATGTTGTACAATGTGATTTATATCACATCAAATTCTGACAGTGCACATGACTACTGGATGAACCATGTATGGTTCCAATTTTGAAGTTTCTACCGAATTTTTAATTCCTGGTGTTCTGGCTGAA

Ace file of the UniGene sp_v3.0_unigene9397

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Eukaryotic translation initiation factor 2c, putative n=1 Tax=Ricinus communis RepID=B9S921_RICCO	-	-	0.0	49%
FL-Next	tr=Argonaute/Zwille-like protein; Picea glauca (White spruce) (Pinus glauca).	-	-	0.0	34%
Sma3	Eukaryotic translation initiation factor 2c, putative	-	-	9.233e-24	-

Source	Gene names
Sma3	AGO1; AGO1507; AGO2; AGO901; AGO906; AGO907; AGO908; AGO909; AGO911; AGO915; At1g31280/T19E23_8; At1g31290; At1g48410; At1g69440; At5g43810; CHLREDRAFT_177263; F10D13_11; GSVIVT00000886001; GSVIVT00001880001; GSVIVT00005949001; GSVIVT00016822001; GSVIVT00

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	endoribonuclease activity	GO:0004521	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	siRNA binding	GO:0035197	Molecular Function	-
Sma3	miRNA binding	GO:0035198	Molecular Function	-
Sma3	multicellular organismal development	GO:0007275	Biological Process	-
Sma3	virus induced gene silencing	GO:0009616	Biological Process	-
Sma3	response to auxin stimulus	GO:0009733	Biological Process	-
Sma3	embryo development ending in seed dormancy	GO:0009793	Biological Process	-
Sma3	auxin metabolic process	GO:0009850	Biological Process	-
Sma3	leaf morphogenesis	GO:0009965	Biological Process	-
Sma3	vegetative phase change	GO:0010050	Biological Process	-
Sma3	response to far red light	GO:0010218	Biological Process	-
Sma3	production of ta-siRNAs involved in RNA interference	GO:0010267	Biological Process	-
Sma3	production of lsiRNA involved in RNA interference	GO:0010599	Biological Process	-
Sma3	RNA interference	GO:0016246	Biological Process	-
Sma3	stem cell maintenance	GO:0019827	Biological Process	-
Sma3	somatic stem cell maintenance	GO:0035019	Biological Process	-
Sma3	gene silencing by miRNA	GO:0035195	Biological Process	-
Sma3	regulation of development, heterochronic	GO:0040034	Biological Process	-
Sma3	leaf development	GO:0048366	Biological Process	-
Sma3	adventitious root development	GO:0048830	Biological Process	-
Sma3	stem cell development	GO:0048864	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Aminotransferase, class-II, pyridoxal-phosphate binding site	IPR001917	-	-
Sma3	DNA methylase, N-6 adenine-specific, conserved site	IPR002052	-	-
Sma3	Argonaute/Dicer protein, PAZ	IPR003100	-	-
Sma3	Stem cell self-renewal protein Piwi	IPR003165	-	-
Sma3	Domain of unknown function DUF221	IPR003864	-	-
Sma3	Sugar transporter, conserved site	IPR005829	-	-
Sma3	Domain of unknown function DUF1785	IPR014811	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G69440.1	AGO7, ZIP Argonaute family protein chr1:26101565-26105016 REVERSE LENGTH=990	47%
RefSeq	Arabidopsis thaliana	NP_177103.1	argonaute-like protein [Arabidopsis thaliana]	47%
RefSeq	Populus trichocarpa	XP_002316108.1	argonaute protein group, partial [Populus trichocarpa]	50%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: Q4PLA9

Fln msg: your sequence is shorter than subject: 546 - 959

Fln protein: PNYVPMEYCMLCEGQRFPRDNLNGYQSKNFSRIACPSADERQRRINQIMLSQDGPKHGPFLPHFGMAVVGDMTKLMGRVLEAPTLKLGDGGRNKQVIPHQEHRQWNLMSSHVFDGRRIQKWGLLSFSWDKPSADRDNTIKTFTSSLVRRCGEIGVAMNPFPFILDYKPMNQFNDMKALQQTLLGVQEKAKGELQILIIVMEEKHAGYNTLKLIAETDVGLVTQCCLYDPHVKKCSDPQTQSQASQYLANLALKINAKVGGSNAALLHSLSRQLPRFGSDHVMYIGADVNHPGSGDSTSPSIAAVVGSINWPWCNRYNARVSYQSHRVEHIQQLEEMSKELLDDYFKANKKLPDRILFFRDGVSESQFDMVLNSELDALREAVAHFKNYNPPVSFIVAQKRHHTRLFLGDGEQRTKSGNVPPGTVVDTVIVHPRQFDFYLCSHNGILGTSKPTHYHVLWDDNRFSSDELETLINNLCYTFARCTKPVSLAPPVYYADLAAYRGRLYLQGLAFTSSETASTSSSSSSSAHLNFPKLHDGVKNAMFFC*

Protein Length: 547

Fln nts: CCGAATTATGTTCCCATGGAGTATTGTATGCTCTGTGAAGGTCAAAGGTTTCCTCGAGATAACTTGAACGGTTACCAGTCAAAGAATTTTAGTCGAATTGCCTGCCCATCTGCTGATGAAAGACAAAGGAGAATCAATCAAATTATGCTGAGTCAAGATGGACCTAAACATGGTCCCTTTCTTCCTCACTTTGGAATGGCAGTGGTTGGGGATATGACAAAGTTGATGGGACGAGTACTAGAAGCTCCCACGCTTAAGCTCGGGGATGGAGGTCGAAATAAGCAAGTAATTCCACACCAGGAACATCGACAGTGGAACCTCATGAGTAGCCATGTTTTTGATGGGAGGCGGATTCAAAAATGGGGTCTCCTAAGCTTCAGCTGGGACAAGCCTTCGGCTGATCGAGACAACACGATTAAGACCTTCACATCTTCCTTGGTGAGAAGGTGTGGAGAGATAGGAGTGGCCATGAATCCGTTTCCTTTCATTTTGGATTATAAGCCCATGAACCAGTTCAATGATATGAAGGCCCTTCAACAAACTTTGTTGGGTGTGCAGGAAAAAGCCAAAGGGGAGTTACAAATTTTAATAATTGTTATGGAGGAGAAACATGCAGGGTATAATACTCTGAAGCTTATTGCAGAAACAGATGTAGGATTGGTGACGCAGTGTTGTTTGTATGACCCCCATGTCAAAAAATGCTCAGATCCACAAACACAATCACAAGCATCACAATATCTGGCTAATTTGGCATTGAAGATAAATGCCAAAGTGGGGGGAAGTAACGCGGCCCTTCTTCATAGCTTGTCTCGCCAGTTACCGAGATTTGGCAGCGACCATGTCATGTACATTGGCGCAGATGTCAATCATCCTGGATCGGGGGATAGTACGAGTCCTTCCATTGCTGCAGTGGTTGGAAGCATCAACTGGCCCTGGTGTAATCGCTATAATGCGAGAGTCAGCTATCAGAGTCACAGGGTGGAACACATCCAACAACTCGAGGAGATGTCTAAGGAATTACTGGACGATTATTTCAAAGCAAACAAGAAGCTACCTGATAGGATACTCTTTTTCAGAGATGGTGTAAGTGAGAGTCAATTCGATATGGTTCTCAACTCAGAATTAGATGCCCTCAGAGAAGCAGTAGCCCACTTCAAAAACTACAATCCTCCTGTTTCCTTCATAGTAGCTCAGAAGAGACATCACACCAGACTGTTCCTTGGTGATGGAGAGCAACGGACGAAGTCTGGCAATGTTCCTCCTGGCACTGTGGTGGACACAGTCATTGTTCATCCACGGCAGTTTGATTTCTATCTGTGCAGCCATAATGGGATTCTGGGCACTAGCAAGCCCACTCATTACCATGTTCTCTGGGATGATAACCGCTTCAGTTCTGATGAGCTGGAAACCTTGATTAACAATCTTTGTTATACATTTGCAAGATGCACAAAGCCAGTGTCATTGGCCCCCCCTGTGTATTATGCAGATCTTGCTGCCTATCGGGGTCGATTATACTTGCAGGGATTAGCATTTACATCGTCTGAGACTGCATCCACTTCATCCTCATCGTCGTCCTCAGCTCACCTGAATTTTCCTAAACTTCATGATGGGGTCAAGAACGCCATGTTCTTTTGCTGA___TTTTGCTATTTCACTGTATATGATTTTAAGGAACTGGGATTATGCATGCAAAGCATGGCCCTGCAAGTGGGCTATTTTGATTGGTACTGGCCCTGCAAGTGGGCTATTTTGATTGGTATTTGCTGAAAGTAGGTTGGTCTTAAAATGGAAAGAAATCCTTTTCCACAGAGATGGAAAGATAGTTGTAGATAGTAGATGGTATGTTCAATTTTTTTCTCTTCTGAAAATGGATGTTGTACAATGTGATTTATATCACATCAAATTCTGACAGTGCACATGACTACTGGATGAACCATGTATGGTTCCAATTTTGAAGTTTCTACCGAATTTTTAATTCCTGGTGTTCTGGCTGAA

Fln Alignment:

Contig9397___PNYVPMEYCMLCEGQRFPRDNLNGYQSKNFSRIACPSADERQRRINQIMLSQDGPKHGPFLPHFGMAVVGDMTKLMGRVLEAPTLKLGDGGRNKQVIPHQEHRQWNLMSSHVFDGRRIQKWGLLSFSWDKPSADRDNTIKTFTSSLVRRCGEIGVAMNPFPFILDYKPMNQF-NDMKALQQTLLGVQEKAKGELQILIIVMEEKHAG--YNTLKLIAETDVGLVTQCCLYDPHVKKCSDPQTQSQASQYLANLALKINAKVGGSNAALLHSLSRQLPRFGSDHVMYIGADVNHPGSGDSTSPSIAAVVGSINWPWCNRYNARVSYQSHRVEHIQQLEE---------MSKELLDDYFKAN------KKLPDRILFFRDGVSESQFDMVLNSELDALREAVAHFK-NYNPPVSFIVAQKRHHTRLFLGDGEQRTKSGNVPPGTVVDTVIVHPRQFDFYLCSHNGILGTSKPTHYHVLWDDNRFSSDELETLINNLCYTFARCTKPVSLAPPVYYADLAAYRGRLYLQ--------GLAFXXXXXXXXXXXXXXXXHLNFPKLHDGVKNAMFFC
Q4PLA9______________PNYLPIELCKILPGQRYTKA-LSTQQRTXLVEQSRQKPDERMQVLLKAM-DVNNYNSDPLLKACNINVDKQLVRLDGRVLDPPTLKFG------KMEEAPRNGRWNFNNKTMVRASKIGDWAIACFN----SRIRSNEITNMARELQQCCGRRGLVMADCLGVLEESPQDRNRNPIDRVERMLSQMKSRLPKPPQFLLCILPERKNSDLYGPWKRKFLADLGVINQC-IAPPNMRKVND--------QYLTNVALKINAKVGGLNSVLSVEFAHKIPKISTKPTIIIGMDVSHGSPGHADSPSISAVVSSREWPLISRYRASVRTQSPKVEMIEALYKPLPSGKDAGMISELLVDFYQSCNPPPNVERKPQQMIVFRDGVSESQFDQVLNVELQAIYKACNHIEAGYKPKVTLIIAQKNHHTKLFPSGGP-----GNVQPGTIVDAQICHPRNFDFYLCPQAGPIGTSRPTHYHVLLDENDFSVDDLQILVHALSYVYQRSTTAISSVAPINYAHLAASQMQQFLKAEDLSETASRSGKGEGSVASGGGGYTAPVPELPVLHRNVCNTMFFC

SNPs (tot: 27)

Position	A %	C %	G %	T %	Probability
965		14		85	0.993533
1012		80		20	0.995493
1036		50	50		1.0
1146			14	85	0.993533
1147	85		14		0.993533
1285		85	14		0.993533
1286	85		14		0.993533
1287		14		85	0.993533
1288		14		85	0.993533
1294		14		85	0.993533
1295		85		14	0.993533
1300	14		85		0.993533
1334	40	60			1.0
1335	20			80	0.995493
1391	87		12		0.992554
1441	88		11		0.923564
1497		88		11	0.923564
1779			10	90	0.90298
1783	88		11		0.923564
1822		10		90	0.90298
1837	20		80		0.999996
1841		11		88	0.923564
1842	11		88		0.923564
1850	33			66	0.997452
1851		33		66	0.997452
1852	33			66	0.997452
1889			25	75	0.996473

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Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain